Third-generation sequencing in the clinical laboratory: exploring the advantages and challenges of nanopore sequencing

LM Petersen, IW Martin, WE Moschetti… - Journal of clinical …, 2019‏ - journals.asm.org
Metagenomic sequencing for infectious disease diagnostics is an important tool that holds
promise for use in the clinical laboratory. Challenges for implementation so far include high …

Clinical use of whole genome sequencing for Mycobacterium tuberculosis

AA Witney, CA Cosgrove, A Arnold, J Hinds, NG Stoker… - BMC medicine, 2016‏ - Springer
Drug-resistant tuberculosis (TB) remains a major challenge to global health and to
healthcare in the UK. In 2014, a total of 6,520 cases of TB were recorded in England, of …

The Oxford Nanopore MinION: delivery of nanopore sequencing to the genomics community

M Jain, HE Olsen, B Paten, M Akeson - Genome biology, 2016‏ - Springer
Nanopore DNA strand sequencing has emerged as a competitive, portable technology.
Reads exceeding 150 kilobases have been achieved, as have in-field detection and …

Long-read metagenomic sequencing reveals shifts in associations of antibiotic resistance genes with mobile genetic elements from sewage to activated sludge

D Dai, C Brown, H Bürgmann, DGJ Larsson, I Nambi… - Microbiome, 2022‏ - Springer
Background There is concern that the microbially rich activated sludge environment of
wastewater treatment plants (WWTPs) may contribute to the dissemination of antibiotic …

Whole-genome sequencing of bacterial pathogens: the future of nosocomial outbreak analysis

S Quainoo, JPM Coolen, SAFT van Hijum… - Clinical microbiology …, 2017‏ - journals.asm.org
Outbreaks of multidrug-resistant bacteria present a frequent threat to vulnerable patient
populations in hospitals around the world. Intensive care unit (ICU) patients are particularly …

[HTML][HTML] Current and future technologies for the detection of antibiotic-resistant bacteria

D Yamin, V Uskoković, AM Wakil, MD Goni… - Diagnostics, 2023‏ - mdpi.com
Antibiotic resistance is a global public health concern, posing a significant threat to the
effectiveness of antibiotics in treating bacterial infections. The accurate and timely detection …

A review on the applications of next generation sequencing technologies as applied to food-related microbiome studies

Y Cao, S Fanning, S Proos, K Jordan… - Frontiers in …, 2017‏ - frontiersin.org
The development of next generation sequencing (NGS) techniques has enabled
researchers to study and understand the world of microorganisms from broader and deeper …

Rapid antibiotic-resistance predictions from genome sequence data for Staphylococcus aureus and Mycobacterium tuberculosis

P Bradley, NC Gordon, TM Walker, L Dunn… - Nature …, 2015‏ - nature.com
The rise of antibiotic-resistant bacteria has led to an urgent need for rapid detection of drug
resistance in clinical samples, and improvements in global surveillance. Here we show how …

Rapid methods for antimicrobial resistance diagnostics

GD Kaprou, I Bergšpica, EA Alexa, A Alvarez-Ordóñez… - Antibiotics, 2021‏ - mdpi.com
Antimicrobial resistance (AMR) is one of the most challenging threats in public health; thus,
there is a growing demand for methods and technologies that enable rapid antimicrobial …

Twenty years of bacterial genome sequencing

NJ Loman, MJ Pallen - Nature Reviews Microbiology, 2015‏ - nature.com
Twenty years ago, the publication of the first bacterial genome sequence, from Haemophilus
influenzae, shook the world of bacteriology. In this Timeline, we review the first two decades …